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Journal of Bacteriology, July 2007, p. 5203-5209, Vol. 189, No. 14
0021-9193/07/$08.00+0 doi:10.1128/JB.00361-07
Copyright © 2007, American Society for Microbiology. All Rights Reserved.

Kluyver Centre for Genomics of Industrial Fermentation, Wageningen Centre for Food Sciences, Wageningen,1 Membrane Enzymology Group, Department of Biochemistry, University of Groningen, Groningen,2 NIZO Food Research, Ede,3 Department of General Microbiology, Wageningen University and Research Centre, Wageningen, The Netherlands4
Received 10 March 2007/ Accepted 1 May 2007
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). Wild-type cells, grown aerobically in the presence of heme, generated a 
even in the presence of the F1-Fo ATPase inhibitor N,N'-dicyclohexylcarbodiimide, while a cytochrome bd-negative mutant strain (CydA
) did not. We also observed high oxygen consumption rates by membrane vesicles prepared from heme-grown cells, compared to CydA
cells, upon the addition of NADH. This demonstrates that NADH is an electron donor for the L. lactis ETC and demonstrates the presence of a membrane-bound NADH-dehydrogenase. Furthermore, we show that the functional respiratory chain is present throughout the exponential and late phases of growth. |
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These damaging effects of oxygen on L. lactis cells are not observed when cells are grown in the presence of both oxygen and a heme source (9, 30, 45). Aerated, heme-grown L. lactis cells display new characteristics such as increased growth yield, resistance to oxidative and acid stress, and improved long-term survival when stored at low temperatures (40). These traits are important for industrial applications, and the use of heme to increase the efficiency of biomass production of starter cultures has been described previously (10, 13, 37). The increased growth efficiency of aerated heme-grown L. lactis cells is due to a shift from homolactic to mixed-acid fermentation, more complete glucose utilization in non-pH-controlled batch cultures, and possibly energy generation by NADH oxidation via the electron transfer chain (ETC) (9). The ability to generate metabolic energy via NADH oxidation by the ETC will be the subject of this work. Increased growth efficiency will make L. lactis more useful as a cell factory for the production of biomass-related compounds such as proteins and vitamins.
Heme is an essential cofactor of cytochrome complexes in the electron transport chains of respiring cells (14, 52). Furthermore, the genomes of several L. lactis strains contain genes which, when expressed, could form a simple ETC if supplied with heme (13). Genes encoding menaquinone biosynthesis enzymes and a bd-type cytochrome (mena)quinoloxidase have, for example, been identified in the genomes of strains IL-1403 and SK11 (http://genome.ornl.gov/microbial/lcre/) (6). The (mena)quinoloxidase is a membrane-bound enzyme consisting of two subunits, which are encoded by cydA and cydB. The cydC and cydD genes encode an ABC transporter, which is required for the assembly of the oxidase (7). This type of cytochrome-containing enzyme is found in a variety of (facultative) aerobic bacteria (16), where it functions as a (alternative) terminal electron acceptor capable of working under low-oxygen conditions (17, 43).
The higher growth yield in the presence of heme and the presence of ETC-related genes in the genome suggest active respiration in aerated heme-grown cells of L. lactis (5). To prove that actual respiration occurs, the formation of a proton motive force (PMF) as a result of ETC activity still needs to be demonstrated. In this paper, we present genetic and physiological evidence for cytochrome bd-associated PMF formation and thus the presence of a functional ETC in L. lactis.
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Cmr) and a cytochrome negative mutant complemented with plasmid pIL253CydABCD. Plasmid pIL253CydABCD is a pIL253 derivative (46) carrying the cydABCD genes (Cmr Eryr). Cells were grown on M17 medium (Difco, Detroit, MI) supplemented with glucose (GM17) to a final concentration of 1% (wt/vol). When indicated, cells were grown in GM17 medium supplemented with heme (hemin) (stock solution, 0.5 mg/ml in 0.05 M NaOH; Sigma) to a final concentration of 2 µg/ml or with the equivalent volume of 0.05 M NaOH as a control. When indicated, chloramphenicol and/or erythromycin was added to a final concentration of 10 µg/ml. Cultures were grown aerobically in 100-ml flasks with shaking at 250 rpm or anaerobically in tubes/glass bottles at 30°C. Annotation of L. lactis MG1363 genes. Sequence data for L. lactis MG1363 were obtained from the L. lactis MG1363 sequencing consortium. DNA sequences of open reading frames (ORFs) were translated into amino acid sequences and annotated by homology using the BLAST algorithm as described previously (1). Prediction of membrane-spanning helices was performed as described previously (53).
Mutant construction.
Molecular cloning techniques were carried out in accordance with standard laboratory procedures (44). For the construction of the knockout plasmid, primers were designed on the basis of MG1363 genome sequence data. A 1-kb fragment upstream of cydA (forward primer p39 [GATCGTCAACCATCAACCAT] and reverse primer p40 [GGTTAGCATTGTTTATCTCC]) and a 1-kb fragment downstream of cydA (forward primer p41 [GTGGATGAATAATGACTGGA] and reverse primer p42 [CCAGCGATAGCAATAAACTG]) were amplified using PCR. The flanking fragments were cloned blunt ended into vector pNZ5317 (23) digested with SwaI (upstream fragment) and Ecl36II (downstream fragment) to produce the knockout vector pRB6671_CydA_KO. The knockout plasmid was transformed into L. lactis MG1363, and a chloramphenicol replacement of the cydA gene was obtained by a double-crossover event by homologous recombination as described previously (22), which resulted in mutant strain CydA
. For complementation studies of the cytochrome-negative mutant (CydA
), a vector carrying the cyd operon (cydABCD) was constructed. The operon was amplified using PCR techniques (forward primer P43 [TGACGCATGCGAGGCCTCAAGAAAGCACTT] and reverse primer P44 [TGACGAGCTCCGTAGACGAGTAACGCATCT]) using the genome of MG1363 as a template. The primer tails (underlined) carried recognition sequences for restriction enzymes SphI and SacI for easy cloning. The PCR product and vector pIL253 were digested with SphI and SacI, purified from gel, and cloned sticky blunt to construct pIL253_CydABCD. Finally, to complement the cytochrome-negative mutant, this plasmid was transformed into the CydA
strain.
Isolation of membrane vesicles. Cells from a 2-liter culture were grown aerobically to late exponential phase (optical density [OD] of about 2.5 to 3.0), washed twice in 100 mM potassium phosphate (pH 7.0), and resuspended in 20 ml of the same buffer. The cell suspension was incubated with 10 mg/ml egg lysozyme (Merck, Darmstadt, Germany) for 30 min at 30°C. Cell lysis was achieved by passage two times through a French pressure cell (American Instrument Corp., Silver Spring, MD) at an operating pressure of 20,000 lb/in2. The orientation of bacterial membrane vesicles prepared by French press is predominantly inside-out (2, 27). The suspension was supplemented with 10 mM MgSO4 and 100 µg/ml DNase and incubated for 15 min at 30°C, followed by the addition of 15 mM K-EDTA. A low spin at 12,000 rpm was performed to remove cell debris and whole cells. The vesicle-containing supernatant was centrifuged at 150,000 x g to harvest the membranes, which were resuspended in 50 mM potassium phosphate (pH 7.0) containing 10% glycerol to a final concentration of 10 to 20 µg/ml, divided into 500-µl aliquots, and stored at 80°C.
Extrusion of membrane vesicles. To obtain single unilamellar vesicles suitable for comparing enzyme activities, 500 µl of membrane suspension was thawed and diluted with 500 µl of 50 mM potassium phosphate (pH 5.5). The 1-ml mixture was extruded using a Miniextruder (Avanti Polar Lipids Inc., Alabaster, United Kingdom) with a 0.4-µm-size nucleopore polycarbonate track etch membrane (Whatman International Ltd., Kent, United Kingdom) to generate inside-out, single laminar vesicles with an average size of 0.4 µm (50).
Measurements of membrane potential.
The fluorescent probe 3',3'-dipropylthiadicarbocyanine [DiSC3(5)] was used to monitor the membrane potential (
) in intact cells (51). The distribution of the probe over the cytoplasmic membrane and the soluble phase is sensitive to changes in the 
. More probe molecules from the soluble phase will dissolve in the membrane with increasing 
, causing the quenching of the fluorescence signal by aggregation (20, 48). Nigericin (K+/H+ exchange) was added to convert
pH into 
, making it possible to estimate the contribution of the pH gradient to the PMF. Valinomycin (K+ ionophore) was added, in combination with nigericin, to cause a total dissipation of the PMF. The fluorescence was measured with a Cary Eclipse fluorescence spectrophotometer combined with a Cary Single Cell Peltier accessory (Varian, Palo Alto, CA) or an SPF-500C spectrofluorometer (SLM Aminco). The fluorescence was measured at an emission wavelength of 666 nm with an excitation wavelength of 643 nm (both with a 5-nm band pass).
Wild-type and CydA
cells were supplemented with heme and grown aerobically. During growth, samples of cells were harvested at early exponential phase (OD at 600 nm [OD600] of 0.4 to 0.48), early/mid-exponential phase (OD600 of 1.04 to 1.08) and mid-exponential phase (OD600 of 1.49 to 1.53) and after overnight growth (OD600 of 4.49 for the wild type and 2.6 for CydA
). Cell samples were washed twice in 50 mM KPi (pH 5.0) and resuspended in the same buffer to an OD600 of 5.0. Subsequently, samples were diluted to an OD600 of 0.3, and N,N'-dicyclohexylcarbodiimide (DCCD; Sigma-Aldrich) (stock, 1 M in ethanol) was added to a final concentration of 1 mM when indicated, or, as a control, the equivalent volume of ethanol was added. DCCD is a well-known inhibitor of the F1-Fo ATPase and prevents PMF formation by the hydrolysis of ATP (15, 47). The samples were incubated for 45 min on ice in the presence of DCCD or ethanol. After incubation, 2 ml of fresh buffer was added to the 1-ml samples to optimize the cell density for measuring fluorescence, after which the samples were transferred into 3-ml cuvettes. Finally, DiSC3(5) was added to a final concentration of 133 nM. Cuvettes containing this mixture were warmed at room temperature for 3 min prior to measuring; 15 mM glucose, 0.1 µM nigericin, or 2 µM valinomycin was added when indicated.
Oxygen uptake measurements. A biological oxygen monitor (model 5300; YSI Scientific, OH) with a Clark-type polarographic oxygen probe and a 15-ml sample chamber was used to measure dissolved oxygen. To measure oxygen consumption, cells were washed twice in 50 mM potassium phosphate (pH 5.0), resuspended in the same buffer to an OD600 of 5.0, and placed on ice. Prior to each measurement, the buffer was heated to 30°C, and the electrode was allowed to equilibrate for 10 min. At time zero, cells were added to a final concentration of an OD600 of 0.2. After 5 min, 13 mM glucose was added. The dissolved oxygen of air-saturated buffer was calibrated using air-saturated water. To measure oxygen consumption by membrane vesicles, 1 ml of membrane vesicle mixture was added to 10 ml 50 mM potassium phosphate (pH 5.0). After 5 min, either 5 mM NADH or NAD+ was added (both obtained from Sigma-Aldrich).
Other analytical procedures. Protein concentrations of membrane preparations were determined using the bicinchoninic acid protein assay reagent (Omnilabo Int., Breda, The Netherlands) (49).
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TABLE 1. Identification by homology searches of NADH-dehydrogenase, (mena)quinoloxidase, and menaquinone biosynthesis genes in the genome of L. lactis MG1363 compared to B. subtilis 168
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TABLE 2. Identification by homology searches of NADH-dehydrogenase, (mena)quinoloxidase, and menaquinone biosynthesis genes in the genome of L. lactis MG1363 compared to L. lactis IL-1403
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FIG. 1. Predicted aerobic ETC of heme-grown L. lactis MG1363. The three principal components of the ETC are the type II NADH dehydrogenase complex, the menaquinol/menaquinone couple, and the cytochrome bd complex. A PMF can be also formed by the hydrolysis of ATP via F1-Fo ATPase.
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). As anticipated, the increased biomass formation and higher pH observed with aerated heme-grown wild-type cells were absent in the CydA
strain, and the growth characteristics resembled those of non-heme-grown wild-type cells. Subsequent complementation of the CydA
mutant with a vector carrying the (mena)quinoloxidase coding operon (pIL253CydABCD) restored the wild-type-like phenotype when grown aerobically with heme. |
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TABLE 3. Aerobic growth (OD600) and acidification of L. lactis with and without hemea
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in whole cells of L. lactis.
The formation of a membrane potential by L. lactis, as a result of electron transport, was determined with the fluorescent probe DiSC3(5). The intensity of fluorescence of the probe is sensitive to changes in the 
, and it decreases with increasing 
and visa versa. The PMF is composed of
pH and 
. In order to estimate the contribution of a pH gradient to the PMF, we added nigericin (a K+/H+ exchanger) to convert the
pH into a 
. Furthermore, the addition of valinomycin (K+ ionophore) plus nigericin collapsed the 
completely. The main proton pump in L. lactis responsible for PMF generation is the F1-Fo ATPase, by pumping protons at the expense of metabolic ATP (26). To discriminate between PMF generation by the ETC and that by the F1-Fo ATPase, the F1-Fo ATPase-specific inhibitor DCCD was used (47). To further validate PMF formation via the ETC, we used a cytochrome bd-negative mutant (CydA
) as a control.
The changes in membrane potential, DiSC3(5) fluorescence, were recorded as a function of time (Fig. 2). In wild-type cells and CydA
cells with no DCCD treatment, the addition of glucose led to an increase in 
. However, for CydA
cells incubated with DCCD, this increase in 
was negligible. The increase in 
after the addition of glucose was transient, since the membrane potential is subsequently converted into a pH gradient (see also Discussion). Accordingly, the addition of nigericin resulted in an increase in 
. The gradual decrease of the 
, that is, upon the addition of nigericin to wild-type cells inhibited with DCCD and of CydA
cells (Fig. 2B and C), was caused by the excess of nigericin and could be prevented by using lower nigericin concentrations (data not shown). The subsequent addition of valinomycin dissipated the 
completely. The fluorescence measurements clearly show that the cytochrome-negative CydA
strain is unable to generate a 
when the F1-Fo ATPase is inhibited by DCCD. In contrast, wild-type heme-grown cells are able to build up 
even in the presence of DCCD. Taken together, these findings indicate the presence of a cytochrome bd-dependent mechanism of PMF generation in wild-type L. lactis cells.
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FIG. 2. Fluorescence traces of DiSC3(5) in whole cells of L. lactis showing the generation of a membrane potential. Cells were prepared as described in Materials and Methods. A decrease in fluorescence signifies an increase in membrane potential. At 1 min, glucose (15 mM) was added; at 2 min, nigericin (0.1 µM) was added; and at 3 min, valinomycin (2 µM) was added. (A) Wild-type cells. (B) Wild-type cell treated with DCCD. (C) CydA cells. (D) CydA cells treated with DCCD.
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0.5,
1.0, and
1.5, respectively) and the late stationary phase (cultures grown overnight). A clear buildup of 
was observed upon the addition of glucose to DCCD-treated and untreated wild-type cells and untreated CydA
cells but never in DCCD-treated CydA
cells, irrespective of the growth phase (Table 4). These results show that a functional ETC in wild-type cells is formed in all stages and not restricted to late exponential and stationary growth phases. |
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TABLE 4. Relative drop in fluorescence of early-exponential-phase, mid-exponential-phase, and overnight (or late-stationary-phase) cultures of DCCD-treated and untreated wild-type and CydA cells after glucose additiona
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cells (13.51 ± 0.02 nmol O2 depletion/min/mg [dry weight] at an OD of 0.50 to 0.58) or wild-type cells grown in the absence of heme (13.02 ± <0.01 nmol O2 depletion/min/mg [dry weight] at an OD of 0.50 to 0.58) (oxygen consumption rates for buffer with heme were not detected). These results confirm that respiration in L. lactis is not a growth-phase-dependent event but is present throughout aerated heme-supplemented growth.
NADH-dependent oxygen consumption by membrane vesicles.
The results with whole cells of L. lactis led to a model of a simple ETC, which uses NADH as an electron donor and oxygen as an electron acceptor (Fig. 1). To prove that NADH can indeed serve as an electron donor, oxygen consumption by membrane vesicles of aerobically grown wild-type cells (with and without heme) and CydA
cells (with heme) was measured (Table 5). Membrane vesicles prepared from heme-grown wild-type cells showed a greater-than-6.5-fold increase in oxygen consumption upon the addition of NADH compared to membrane vesicles from wild-type cells grown without heme or to membrane vesicles from heme-grown CydA
cells. The oxygen consumptions by the latter two were comparable. No oxygen consumption was observed when membrane vesicles of heme-grown wild-type cells were supplied with NAD+, demonstrating the need for the reduced form of NAD. Furthermore, NADH added to buffer without membrane vesicles led to only a limited amount of oxygen consumption (data not shown).
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TABLE 5. Oxygen consumption by membrane vesicles at 25°C after the addition of NADH or NADa
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) as a negative control lacking the respiratory phenotype. We used DCCD to inhibit the F1-Fo ATPase, the primary PMF-generating system in fermentative lactic acid bacteria (LAB) using ATP as the energy source (19). DCCD-treated heme-supplemented wild-type cells were still capable of generating a PMF, while in contrast, DCCD-treated heme-supplemented CydA
cells were not. These two observations demonstrate that heme-supplemented wild-type cells have an additional PMF-generating system besides the F1-Fo ATPase. This PMF-generating system requires a functional cytochrome bd complex and implies the presence of a functional ETC.
The slight decrease in fluorescence upon the addition of glucose to DCCD-treated CydA
cells is explained by the incomplete inhibition of the F1-Fo ATPase by DCCD (23). In addition to the F1-Fo ATPase and the ETC, the contribution of alternative mechanisms of PMF generation, if present at all, to the overall energy conservation in L. lactis seems minimal (24, 29, 34, 35). What is clearly seen in the fluorescence recordings of the heme-supplemented wild-type cells is that the addition of glucose leads to an initial rapid increase in 
and a subsequent conversion into a
pH. This conversion in
pH is deduced from the increase in 
upon the addition of nigericin. Although the membrane of a cell acts as a capacitor, its capacitance is low. Consequently, the extrusion of a few protons already leads to a large 
. To generate a
pH of a similar size, the cell needs to pump out far more protons, and this would lead to a very high 
. Therefore, mechanisms are present to increase the
pH at the expense of 
, i.e., through the electrogenic uptake of K+ ions, which allows more protons to be pumped out (4, 21, 36).
Respiring cells (aerated and heme supplemented) from an exponentially growing culture showed an increased oxygen consumption rate compared to similarly grown cells containing a disruption in the cytochrome genes or compared to non-heme-grown wild-type cells. These results confirm that the L. lactis ETC leads to the reduction of oxygen. An indication of the fact that respiration is not growth phase dependent is the observation that in heme-supplemented early-exponential-phase wild-type cells, respiration is already maximal. Additionally, we have observed that heme-grown wild-type cells incubated with DCCD can still form a clear PMF, irrespective of the growth phase from which they were harvested. Therefore, we can conclude that a fully functional ETC is present in heme-grown wild-type cells throughout growth and is not limited to the late exponential or stationary phase.
In this work and that of others (13), it has been proposed that NADH is an important electron donor for the ETC, which explains the observation of mixed acid fermentation under respiratory conditions. Membrane vesicles prepared from wild-type cells grown with heme showed a greater-than-6.5-fold increase in oxygen consumption compared to wild-type cells grown without heme and CydA
cells grown with heme. Furthermore, this oxygen consumption was dependent on the reduced form of NAD (NADH). We have thus clearly demonstrated that NADH is a likely electron donor for the ETC in L. lactis and that a membrane-bound NADH dehydrogenase is present.
When NADH is added to membrane vesicles of heme-grown CydA
or non-heme-grown wild-type cells, there is still some oxygen consumed. Roughly 10% of this oxygen consumption can be attributed to a direct chemical reaction of NADH with oxygen. The rest of the observed NADH-dependent oxygen consumption in the control experiments can be attributed to the NADH oxidases that are known to be present in L. lactis. Although these NADH oxidases do not contain any membrane-spanning helices, they can be (loosely) associated with the membrane fraction (http://genome.ornl.gov/microbial/lcre/). This could explain the NADH-dependent, membrane-associated oxygen consumption seen in the membrane fractions from non-heme-grown wild-type cells or heme-grown CydA
cells.
Since in the dairy environment, little or no heme or oxygen is present, respiration is not expected to contribute significantly to growth and metabolic conversion. Heme-dependent respiration is therefore most likely a trait that confers a significant selective advantage in the original habitat of L. lactis: the plant surface or phyllosphere. An intriguing question, then, is the origin of the heme source in the phyllosphere. This and other questions concerning the respiratory capacities of LAB remain and promise increased scientific insight and novel industrial applications.
The definition of L. Lactis as a facultative anaerobe seems not to be true in all situations (e.g., when heme and oxygen are present). In light of this study, a better definition of L. lactis would be a facultative aerobe. It is still largely unknown how many other LAB with a similar facultative aerobic metabolism exist. An extensive screening among the different species (pediococci, lactococci, and lactobacilli) is required to better define and characterize LAB as a group. Some information on the respiratory capabilities of a limited number of LAB, mostly streptococci and enterococci, can already be found in the literature (41, 42, 45, 56, 59, 60). Interestingly, analysis of the large 3.3-Mb genome of Lactobacillus plantarum WCFS revealed the presence of genes coding for a fumarate reductase and heme-dependent nitrate reductase complex, creating a branched ETC capable of oxygen and nitrate respiration (18, 38). This would point to more possibilities for electron transfer and energy conservation in Lactobacillus plantarum than in L. lactis. The future exploitation of the respiratory capacities of LAB could result in improved industrially important traits (higher biomass/gram carbon source, increased resistance to acid stress and oxygen stress, and increased survival rate when stored at low temperatures), making the organisms even more attractive as cell factories.
Published ahead of print on 11 May 2007. ![]()
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